mhc_epitope_energy Directory Reference

Directory dependency graph for mhc_epitope_energy:

Files
file	MHCEpitopeConstraint.cc
	A constraint for MHC epitope scores Follows analogous file for Vikram K. Mulligan's NetChargeEnergy.
file	MHCEpitopeConstraint.fwd.hh
	Headers for a constraint for MHC epitope scores.
file	MHCEpitopeConstraint.hh
	Headers for a constraint for MHC epitope scores.
file	MHCEpitopeEnergy.cc
	An energy encapsulating prediction of MHC-peptide binding, to enable deimmunization by mutagenic epitope deletion The code is largely based on (via copying and modifying) NetChargeEnergy (helpers) and HBNetEnergy (only updating around substitution position)
file	MHCEpitopeEnergy.fwd.hh
	Forward declarations for a MHCEpitopeEnergy.
file	MHCEpitopeEnergy.hh
	An energy encapsulating prediction of MHC-peptide binding, to enable deimmunization by mutagenic epitope deletion.
file	MHCEpitopeEnergyCreator.hh
	Handles instantiation of a new MHCEpitopeEnergy instance and specification of its score_type "mhc_epitope_energy".
file	MHCEpitopeEnergySetup.cc
	A helper for the MHCEpitopeEnergy.
file	MHCEpitopeEnergySetup.fwd.hh
	Forward declarations for a helper class that stores the setup information for the MHCEpitopeEnergy score term.
file	MHCEpitopeEnergySetup.hh
file	MHCEpitopePredictor.cc
	Base class for an MHC epitope predictor, which takes a peptide (string) and returns a score predicting its risk of MHC binding (lower is lower risk, with 0 being none)
file	MHCEpitopePredictor.fwd.hh
	forward declaration for class MHCEpitopePredictor
file	MHCEpitopePredictor.hh
	Base class for an MHC epitope predictor, which takes a peptide (string) and returns a score predicting its risk of MHC binding (lower is lower risk, with 0 being none)
file	MHCEpitopePredictorExternal.cc
	MHC epitope predictor using calculations from an external program cached in an sqlite database.
file	MHCEpitopePredictorExternal.fwd.hh
	forward declaration for class MHCEpitopePredictorExternal
file	MHCEpitopePredictorExternal.hh
	MHC epitope predictor using calculations from an external program cached in an sqlite database.
file	MHCEpitopePredictorMatrix.cc
	MHC epitope predictor using a position weight matrix, targeted to Propred though in theory generalizable to others.
file	MHCEpitopePredictorMatrix.fwd.hh
	forward declaration for class MHCEpitopePredictorMatrix
file	MHCEpitopePredictorMatrix.hh
	MHC epitope predictor using a position weight matrix, targeted to Propred though in theory generalizable to others.
file	MHCEpitopePredictorPreLoaded.cc
	MHC epitope predictor with precomputed values loaded into a peptide->score map.
file	MHCEpitopePredictorPreLoaded.fwd.hh
	forward declaration for class MHCEpitopePredictorPreLoaded
file	MHCEpitopePredictorPreLoaded.hh